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The lysin motif (LysM)-containing protein is one of widespread pattern-recognition receptors in prokaryotes and eukaryotes. Numerous LysM-containing gene sequences are present in gene databases; however, few have been well characterized, especially in echinoderms. In this study, the full-length cDNA of a novel LysM-containing gene was obtained from the sea cucumber Apostichopus japonicus , named AjLysM-1 , using polymerase chain reaction (PCR) combined with rapid amplification of cDNA ends. We prepared and expressed recombinant AjLysM-1 protein (rAjLysM-1) and determined its pathogen-recognition ability by enzyme-linked immunosorbent and immunofluorescence assays. We also analyzed the tissue expression pattern and response to immune challenges of AjLysM-1 using quantitative real-time reverse transcription-PCR and in situ hybridization. The AjLysM-1 protein was predicted to be an intracellular non-secreted LysM-containing protein, highly homologous to the same protein in other marine echinoderms. AjLysM-1 transcripts were highest expressed in coelomocytes and were strikingly induced by challenge with representative bacterial and fungal polysaccharides. rAjLysM-1 showed weak binding to mannan, Pseudoalteromonas nigrifaciens , and Shewanella baltica , implying that AjLysM-1 might provide inadequate defense against Gram-negative bacteria and fungi. Notably, rAjLysM-1 also interacted with tyrosine protein kinase and filamin-B, indicating that it could be involved in focal adhesion in A. japonicus. These findings improve our understanding of the functions of LysM-containing proteins in marine echinoderms. • A novel LysM-containing gene in Apostichopus japonicus , AjLysM-1 , were uncovered. • AjLysM-1 is an intracellular non-secreted protein with pathogen-recognition abilities. • AjLysM-1 might provide inadequate defense against Gram-negative bacteria and fungi. • AjLysM-1 was proven to be interacted with tyrosine protein kinase and filamin-B. [ABSTRACT FROM AUTHOR]

Summary: Nowadays, the true economic and nutritional value of food is underpinned by both origin and quality traits, more often expressed as increased quality benefits derived from the origin source. Gut microbiota contribute to food metabolism and host health, therefore, it may be suitable as a qualifying indicator of origin and quality of economic species. Here, we investigated relationships between the gut microbiota of the sea cucumber (Apostichopus japonicus), a valuable aquaculture species in Asia, with their origins and quality metrics. Based on data from 287 intestinal samples, we generated the first biogeographical patterns for A. japonicus gut microbiota from origins across China. Importantly, A. japonicus origins were predicted using the random forest model that was constructed using 20 key gut bacterial genera, with 97.6% accuracy. Furthermore, quality traits such as saponin, fat and taurine were also successfully predicted by random forest models based on gut microbiota, with approximately 80% consistency between predicted and true values. We showed that substantial variations existed in the gut microbiota and quality variables in A. japonicus across different origins, and we also demonstrated the great potential of gut microbiota to track A. japonicus origins and predict their quality traits. [ABSTRACT FROM AUTHOR]

Matrix metalloproteinases (MMPs) are an important family of proteinases involved in various physiological processes and associated with the immune response. However, the role of MMPs in the immune response remains unclear. To explore the possible role of MMPs in innate immunity, this study selected the MMP-16 gene encoding peptidoglycan (PGN) binding domain identified in the sea cucumber Apostichopus japonicus (named AjMMP-16, GenBank accession No. AQT26486) for microbial polysaccharide-induced transcriptional expression analysis by quantitative real-time PCR, correlation analysis with nine representative genes from A. japonicus immune pathways in microbial polysaccharide-induced transcriptional expression by using Pearson's correlation test, and prokaryotic recombinant expression. Next, its recombinant protein was employed for microbial polysaccharide-binding analysis with ELISA and bacterial binding analysis with the indirect immunofluorescence method. The results showed that AjMMP-16 was significantly induced by diaminopimelic acid (DAP)-type PGN, lipopolysaccharide, mannan, and β-1,3-glucan and was closely correlated with myeloid differentiation factor 88 (MyD88) in microbial polysaccharide-induced transcriptional expression. In addition, recombinant AjMMP-16 bound to lysine-type PGN, DAP-type PGN, lipopolysaccharide, mannan, β-1,3-glucan, Vibrio splendidus , Pseudoalteromonas nigrifaciens , Shewanella baltica , Bacillus cereus , Escherichia coli , and Staphylococcus aureus. These results suggest that AjMMP-16 might act as a pattern recognition receptor in innate immunity and play an important role in initiating the MyD88-dependent Toll-like receptor signaling pathway. • AjMMP-16 was able to be induced by diverse microbial polysaccharides. • AjMMP-16 might be associated with MyD88-dependent TLR signaling pathway. • AjMMP-16 had broad-spectrum pathogen recognition ability. [ABSTRACT FROM AUTHOR]

Effects of dietary Lactobacillus acidophilus and tussah immunoreactive substances (TIS) on disease resistance of sea cucumber (Apostichopus japonicus) against Vibrio splendidus were investigated. Sea cucumbers were fed with a basal diet in the control group (CK group) or were supplemented with L. acidophilus (L group), TIS (T group) or both (LT group). The challenge test with V. splendidus was conducted after the feeding trial. The cumulative mortality rate in the LT group was significantly lower, while the highest mortality occurred in the control group. The LT group showed better digestive and immune parameters compared with the other treatments. Dietary L. acidophilus and TIS in combination could effectively enhance digestive function and food uptake, depress oxidative damage and improve the organismal defence capability. Regarding gut microbiota profiles, the LT group was more capable of inhibiting potentially opportunistic pathogens and regulating intestinal flora balance compared with the other groups. The administration of L. acidophilus and TIS in the diet could effectively improve disease resistance against V. splendidus of sea cucumbers by improving the immune and digestive enzyme activities and modulating intestinal microflora, signalling a potential role in the development and production of aquatic feed. [ABSTRACT FROM AUTHOR]

Pattern recognition receptors (PRRs) are the first line of immune defense in invertebrates against pathogen infection; they recognize pathogens and transmit signals to downstream immune pathways. Among these, peptidoglycan recognition proteins (PGRPs) are an important family in invertebrates that generally comprise of complicated isoforms. A comprehensive understanding of PGRPs in evolutionarily and economically important marine invertebrates, such as the sea cucumber, Apostichopus japonicus, is crucial. Previous studies have identified two PGRPs in sea cucumber, AjPGRP-S and AjPGRP-S1 , and another novel short-type PGRP, AjPGRP-S3 , was additionally identified here. The full-length cDNA sequence of AjPGRP-S3 was obtained here by PCR-RACE, followed by which showed its gene expression analyses by in situ hybridization that showed it to be relatively highly expressed in coelomocytes and tube feet. Based on an analysis of the recombinant protein, rAjPGRP-S3, a board-spectrum pathogen recognition ability was noted that covered diverse Gram-negative and -positive bacteria, and fungi. Moreover, according to the results of yeast two-hybridization, it was suggested that rAJPGRP-S3 interacted with multiple immune-related factors, including proteins involved in the complement system, extracellular matrix, vesicle trafficking, and antioxidant system. These findings prove the important functions of AjPGRP-S3 in the transduction of pathogen signals to downstream immune effectors and help explore the functional differences in the AjPGRP isoforms. • A novel short-type peptidoglycan recognition gene in sea cucumber, AjPGRP-S3 , were uncovered. • AjPGRP-S3 is strongly expressed in coelomocytes with unique polysaccharide recognition specificity. • AjPGRP-S3 interacts with complement system and extracellular matrix proteins. • AjPGRP-S3 transduces the pathogen invasion-related signal to activate phagocytosis. [ABSTRACT FROM AUTHOR]

Sea cucumber Apostichopus japonicus is an important economic species in echinoderms; however, its culture frequently suffered from diseases. Environmental stress was found to be a dominant inducer of A. japonicus diseases, and thus, discovering the characteristics of immune system under environmental stress is of great significance for disease control in A. japonicus culture. Phenoloxidase (PO) is recognized as a crucial immune‐related enzyme in invertebrates. In order to preliminarily illustrate the different roles that A. japonicus PO isoforms play under environmental stresses, the transcriptional expression of three identified A. japonicus PO isoforms (named as AjPOI, AjPOII and AjPOIII respectively) after different in vivo environmental stress simulations was determined with quantitative real‐time PCR method. Meanwhile, the transcriptional expression analysis of other representational immune‐related factors under environmental stresses was also performed for the evaluation of relationships between AjPOs and other immune‐related factors. The correlations between AjPOs and other immune‐related factors were analysed using Pearson correlation coefficient, and the effects of AjPOs on other immune‐related factors were then tested by dsRNA interference method. The results of transcriptional expression analysis indicated that AjPOI was involved in the resistance to low salinity, low temperature and hypoxia; AjPOII and AjPOIII were both required for the resistance to low salinity, high temperature, low temperature and hypoxia; and all three AjPOs were excluded from the response against high salinity. In addition, three AjPOs were found to take part in different periods of resistance to environmental stresses, and this property made A. japonicus PO system capable of outputting resistance activities continuously. The correlation analysis combined with dsRNA interference test revealed that AjPOI was capable of regulating AjCTSD, AjI‐LYZ and AjMTF expression; AjPOII and AjPOIII both played important roles in the regulation of AjC‐LYZ expression; and AjPOIII was also able to regulate AjToll expression. These findings suggested that A. japonicus PO isoforms function in innate immunity not only via catalysing the oxidative reactions, but also by broadly regulating the expression of other immune‐related factors. On the whole, three AjPOs showed obvious differences among each other in the resistance to environmental stresses and the regulation of other immune‐related factors, but comparatively, AjPOII and AjPOIII shared more similarity. [ABSTRACT FROM AUTHOR]

The gender differences of immunity have been elucidated in many vertebrates and invertebrates. However, the information of this difference was still not clear in the sea cucumber Apostichopus japonicus , which is one of the most valuable aquaculture species and susceptible to diseases caused by pathogen infection. In the present study, the transcriptome of coelomocytes from female and male A. japonicus before and after spawning was obtained by RNA-sequencing technology. A total of 4,538 and 8,248 differentially expressed genes were identified between female and male A. japonicus before and after spawning, respectively, indicating that the gender differences of gene expression profiles in A. japonicus were more remarkable after spawning. Further KEGG enrichment analyses were conducted for both male and female up-regulated genes before and after spawning. The results revealed that the capacity to kill pathogens in female A. japonicus might be more powerful than that in males no matter before and after spawning; the antioxidant ability in male A. japonicus was probably stronger than that in females after spawning; the complement system in male A. japonicus might be more effective than that in females after spawning; and the apoptosis was likely to be more serious in male A. japonicus before spawning. Moreover, we speculated that the fatty acid composition might be one of the inducements for gender specific immune differences of A. japonicus. Overall, the results of our study illustrated the global gender specific immune differences of A. japonicus and contributed to understanding of the molecular mechanisms underlying sea cucumber immune regulation. • Differentially expressed genes related to gender were analyzed in Apostichopus japonicus. • The capacity to kill pathogen was probably more powerful in female A. japonicus. • The antioxidant ability might be stronger in male A. japonicus after spawning. • The complement system is more effective in male A. japonicus after spawning. • The apoptosis was likely more serious in male A. japonicus before spawning. [ABSTRACT FROM AUTHOR]

Apostichopus japonicus is one of the most important aquaculture species in China. Skin ulceration syndrome (SUS) of sea cucumber is a common and serious disease affected the development of A . japonicus culture industry. To better understand the response mechanisms of A . japonicus during SUS progression, the protein variations in the body wall of A . japonicus at different stages of SUS were investigated by a comparative proteomic approach based on isobaric tags for relative and absolute quantification. A total of 1449 proteins were identified from the samples at different SUS stages. Among these proteins, 145 proteins were differentially expressed in the SUS-related samples compared to those of healthy A . japonicus . These differentially expressed proteins involved a wide range of functions. Among these differentially expressed proteins, only two proteins, alpha-5-collagen and an unknown function protein, were differentially expressed during the whole progression of SUS compared with healthy A . japonicus . In addition, ATP synthase subunit beta (ATP5β) interacted with a variety of proteins with different functions during the SUS progression. These results implied that alpha-5-collagen and ATP5β could play important roles during the SUS progression of A . japonicus . Our study provided a new sight to understand the molecular responses of sea cucumber during the SUS progression and accumulated data for the prevention of SUS in sea cucumber aquaculture. Biological significance The current study aimed to reveal how the body wall of Apostichopus japonicus response to skin ulceration syndrome (SUS). To the best of our knowledge, this is the first proteomic study analyzing the differences in protein profile of sea cucumber during the whole SUS progression. By analyzing the expression differences of the proteome via isobaric labeling-based quantitative proteomic, we identified some proteins which may play important roles during the SUS progression. According to the enrichment analyses of these proteins based on Gene Ontology and Kyoto Encyclopedia of Genes and Genomes, a draft view of how the sea cucumber affected by SUS has been drawn. The common and unique differentially expressed proteins by Venn analysis showed that alpha-5-collagen was down-regulated at all stages of SUS, which had the potential as a target component for the host-directed SUS therapy. In addition, ATP5β, a subunit of mitochondrial ATP synthase, interacting with a variety of proteins with different functions during the SUS progression. This result illustrated that energy production and metabolism could play an important role in the formation of skin ulceration and resistance to pathogens in sea cucumber. The results of this study will be helpful for researchers to gain insights into the complex molecular mechanism of SUS in sea cucumber. [ABSTRACT FROM AUTHOR]

In order to preliminarily illustrate the functional differences of phenoloxidases (POs) in Apostichopus japonicus , the full-length cDNAs of two POs (named as AjPOⅡ and AjPOⅢ, respectively) were cloned from the coelomocytes of A. japonicus using 3′- and 5′-rapid amplification of cDNA ends method, and combined with the previously acquired full-length cDNA of a laccase-type PO from A. japonicus (Accession No. KF040052 , named as AjPOⅠ), the sequence structure and phylogenic status of POs from A. japonicus (AjPOs) were comparatively analyzed, and the transcriptional expression of AjPOs in different tissues, at different developmental stages and after different bacterial challenges was determined with quantitative real-time PCR method. Sequence analysis indicated AjPOⅡ and AjPOⅢ were both laccase-type POs, coincident to the results of phylogenic analysis. Sequence analysis also showed that AjPOⅠ had a transmembrane domain (J. Jiang et al., 2014), AjPOⅡ contained a signal peptide, and AjPOⅢ possessed a signal peptide and a transmembrane domain, implying that three AjPOs might play different roles in immune and physiological processes. Transcriptional expression analysis showed that AjPOⅡ and AjPOⅢ were most abundant in tube feet, while AjPOⅠhad the highest expression level in coelomocytes (J. Jiang et al., 2014), suggesting that AjPOⅠ may be mainly involved in immune response, while AjPOⅡ and AjPOⅢ are probably responsible for other physiological processes in addition to immune response. Besides, three AjPOs were determined to have different expression patterns during organism development and different spectrums of response against bacteria, which further indicated that there might be immune and physiological functional differentiation among three AjPOs. [ABSTRACT FROM AUTHOR]

In order to understand the effects of seasonal change on the immunity of sea cucumber Apostichopus japonicus cultured in pond, A. japonicus with body weight of 12.2 ± 4.5 g (sample A) and 32.6 ± 7.1 g (sample B), respectively, were collected monthly and randomly from a typical pond during a year cycle and employed for the evaluation of immunocompetence. Simultaneously, the environmental factors in the pond including water temperature, pH, salinity and dissolved oxygen (DO) were measured using a handheld multiparameter meter. The activities of acid phosphatase (ACP), alkaline phosphatase (ALP), lysozyme ( LYZ), phenoloxidase (PO), superoxide dismutase ( SOD), catalase ( CAT) and myeloperoxidase ( MPO) in the coelomic fluid were selected for the evaluation of A. japonicus immunocompetence and determined using biochemical methods. The results showed that in both samples, the activities of all determined enzymes had small values in winter and early spring, and LYZ, CAT and MPO activities also presented small values in summer, suggesting that pond-cultured A. japonicus underwent immunosuppression twice during a year cycle, and the immunosuppression occurred in winter and early spring was more severe than that occurred in summer. In addition, most of the determined enzymes showed different variations between the two samples, and had significantly negative correlation with protein concentration, which was significantly and negatively correlated with water temperature, revealing that body weight and water temperature might have crucial effects on the immunity of A. japonicus cultured in pond. [ABSTRACT FROM AUTHOR]

In order to preliminarily understand the immune difference between females and males in the sea cucumber Apostichopus japonicus , the activities assay of superoxide dismutase (SOD), catalase (CAT), peroxidase (POD), phenoloxidase (PO), acid phosphatase (ACP) and alkaline phosphatase (ALP) with biochemical methods, the detection of PO isozymes with native-PAGE and catechol staining, and the test of antibacterial activities with bacterial growth curve determination method were performed in this study using cell-free coelomic fluid (CCF) and coelomocyte lysate supernatant (CLS) from females and males as the samples. The PO activities were not detected in the CLS and showed no significant difference between the CCF from females and males. However, totally five PO isozyme bands were detected in the CLS of females while only four were detected in the CLS of males after zymogram analysis. These results implied that the PO isozymes in the coelomocytes of viripotent A. japonicus were inactive under natural condition and may be activated by some certain treatments during native-PAGE, and PO might play different immune and physiological roles between females and males. In addition, the activities of SOD, CAT, POD and ALP in the CCF and the activities of CAT, POD, ACP and ALP in the CLS from males were all significantly higher than those from females. The results collectively suggested that in viripotent A. japonicus , the gender had a remarkable effect on the immunity, and the immunocompetence of males might have an advantage over that of females. Furthermore, the activities of all determined enzymes except PO and the number of detected PO isozymes showed higher values in CLS than in CCF, implying that in viripotent A. japonicus , the coelomocytes might take more immune responsibility in comparison with CCF. [ABSTRACT FROM AUTHOR]

Abstract: Phenoloxidase (PO) is a crucial immune-related enzyme in invertebrates. In this study, three POs of the sea cucumber Apostichopus japonicus were detected in coelomic fluid using linear-gradient native-PAGE combined with catechol staining and then partially purified by gel excising. The results showed that the three POs had a color of mahogany (AjPO1), yellow (AjPO2) and purple (AjPO3) respectively with molecular weights smaller than 21kDa in native-PAGE after staining with catechol. Enzymatic activities analysis revealed that AjPO1, AjPO2 and AjPO3 had optimal temperature of 45, 95 and 85°C and pH of 5.0, 8.0 and 8.0, respectively. Kinetic analysis showed that the K m values of AjPO1 for catechol, l-DOPA, dopamine and hydroquinone were 3.23, 0.86, 3.98 and 1.20mmol/l, respectively, those of AjPO2 were 0.31, 0.38, 2.05 and 1.30mmol/l, respectively, and those of AjPO3 were 5.95, 1.28, 5.81 and 0.62mmol/l, respectively. These results suggest that the three POs are laccase-type phenoloxidase. The activities of all three A. japonicus POs were significantly promoted by Ca2+, Mg2+ and Mn2+, and strongly inhibited by ethylenediamine tetraacetic acid disodium (EDTA), sodium diethyldithiocarbamate (DETC) and some common antioxidants. The inhibitions by EDTA and DETC suggest that the three A. japonicus POs are copper-containing metalloenzymes. Immune-responsive analysis showed that the total PO activities in coelomocytes (TPAC) increased greatly after lipopolysaccharide (LPS) challenge and declined significantly after polyinosinic–polycytidylic acid (PolyI:C) challenge, implying that A. japonicus PO immune system, which is composed of several isoenzymes with different characteristics, is closely involved in the defense against the infection of Gram-negative bacteria and double-stranded RNA viruses. [Copyright &y& Elsevier]

Abstract: Phenoloxidase (PO) is a crucial component of the immune system of echinoderms. In the present study, the full-length cDNA of PO (AjPO) was cloned from coelomocytes of the sea cucumber Apostichopus japonicus using 3′- and 5′-rapid amplification of cDNA ends (RACE) PCR method, which is 2508 bp, with an open reading frame (ORF) of 2040 bp encoding 679 amino acids. AjPO contains a transmembrane domain, and three Cu-oxidase domains with copper binding centers formed by 10 histidines, one cysteine and one methionine respectively. Phylogenetic analysis revealed that AjPO was clustered with laccase-type POs of invertebrates. Using the isolated membrane proteins as crude AjPO, the enzyme could catalyze the substrates catechol, L-3,4-dihydroxyphenylalanine (l-DOPA), dopamine and hydroquinone, but failed to oxidize tyrosine. The results described above collectively proved that AjPO was a membrane-binding laccase-type PO. The quantitative real-time PCR (qRT-PCR) analysis revealed that AjPO mRNA was expressed in muscle, body wall, coelomocytes, tube feet, respiratory tree and intestine with the highest expression level in coelomocytes. AjPO could be significantly induced by lipopolysaccharide (LPS), peptidoglycan (PGN), Zymosan A and polyinosinic-polycytidylic acid (PolyI:C), suggesting AjPO is closely involved in the defense against the infection of bacteria, fungi and double-stranded RNA viruses. [Copyright &y& Elsevier]

Peptidoglycan recognition proteins (PGRPs) comprise a family of pattern recognition receptors (PRRs) with an important role in innate immunity. Here, we amplified the full-length cDNA of a novel PGRP from the sea cucumber A. japonicus (named AjPGRP-S1) using RACE. Subsequently, we prepared a codon-optimized recombinant AjPGRP-S1 (rAjPGRP-S1) protein and raised a polyclonal antibody against rAjPGRP-S1 by immunizing rabbits. At the transcriptional level, the tissue expression pattern of AjPGRP-S1 was determined by in situ hybridization and RT-qPCR, while the gene expression of AjPGRP-S1 after microbial polysaccharide challenge was also evaluated by RT-qPCR. Amidase activity was measured using the microplate method; the pathogen recognition characteristics were determined by ELISA and indirect immunofluorescence assay; and the immune factors that interact with AjPGRP-S1 were screened and identified via pull-down assay combined with LC-MS/MS. The AjPGRP-S1 protein was predicted to contain a signal peptide, a PGRP domain, and a molecular mass of 24.6 kDa, but lacked a cysteine residue that is indispensable for the formation of a Zn2+-binding site and amidase activity. Indeed, no amidase activity was detected from rAjPGRP-S1. These results indicated that AjPGRP-S1 might be a secretory, short-type, and recognition-type PGRP. AjPGRP-S1 transcripts were relatively highly abundant in coelomocytes and were markedly induced by challenge with diaminopimelic acid (DAP)-type peptidoglycan (PGN), suggesting that AjPGRP-S1 is mainly expressed by coelomocytes and might play a crucial role in the defense against Gram-negative bacteria. rAjPGRP-S1 was determined to be capable of binding to DAP-type PGN, lysine (Lys)-type PGN, β-1,3-glucan, Vibrio splendidus , Pseudoalteromonas nigrifaciens , Shewanella baltica , Bacillus cereus , Escherichia coli , and Staphylococcus aureus , but not lipopolysaccharide or mannan, implying that AjPGRP-S1 may have a broad-spectrum pathogen recognition ability. Additionally, rAjPGRP-S1 was found to interact either directly or indirectly with multiple soluble and insoluble PRRs and diverse antioxidation-, antistress-, complement system-, bacteria lysis-, and immune response-related factors, as well as several potential immunomodulatory factors, indicating that complete pathogen recognition by the A. japonicus immune system likely requires the synergistic activity of AjPGRP-S1 and other PRRs. These results further implied that AjPGRP-S1 might transduce the immune signal generated following pathogen recognition to multiple immune effectors, thereby inducing both pathogen-attack-oriented and self-protection-oriented immune reactions, as well as to potential immunomodulatory factors so as to adjust the response of the A. japonicus immune system. • AjPGRP-S1 is a secretory and recognition-type PGRP. • AjPGRP-S1 was mainly expressed by coelomocytes. • AjPGRP-S1 showed notable response to DAP-type PGN challenge. • AjPGRP-S1 has broad-spectrum pathogen recognition ability. • AjPGRP-S1 showed direct or indirect interaction with multiple immune factors. [ABSTRACT FROM AUTHOR]

Bacteria communities in the aquaculture environment have been shown to greatly influence the growth of culture species. The sea cucumber (Apostichopus japonicus) is one of the most important aquaculture species in China, with numerous economic benefits. The growth and physiological characteristics of A. japonicus exhibit remarkable seasonal variation. However, current knowledge regarding the bacterial communities in A. japonicus culture ponds and their potential roles in the regulation of A. japonicus growth and physiology remain unclear. In the present study, Illumina sequencing based on the bacterial 16S rRNA gene was used to investigate the variations in bacterial communities in the surface water and sediment of A. japonicus culture ponds for a period of 1 year. The sediments exhibited a higher diversity of bacterial communities, and a higher abundance of microorganisms involved in sulfur metabolism; however, the surface water had a higher abundance of bacterial species associated with the degradation of organic matter. Furthermore, the bacterial communities in the water column showed a "3 + 1" monthly pattern and those in the sediments exhibited a seasonal succession. The higher abundances of bacteria associated with organic pollution degradation and functions associated with bio-active compound secretion were detected in water samples collected in April, August, and December. In contrast, bacteria that are considered to be food sources for A. japonicus were more abundant in pond sediments in autumn and spring. Finally, correlation analysis demonstrated that water temperature negatively regulated the sulfur cycling efficiency of bacterial communities in sediments of A. japonicus culture ponds. This study provides an important theoretical basis for the micro-ecological regulation of pond-cultured A. japonicus. Unlabelled Image • Microbiomes in the water and sediment of sea cucumber culture pond were compared. • Pond sediments had a higher abundance of bacteria involved in sulfur metabolism. • Water bacteria could remove more organic pollutants in April, August, and December. • Pond water bacteria could be more responsible to the degradation of organic matters. • Temperature negatively regulated the sulfur cycling of bacteria in pond sediments. [ABSTRACT FROM AUTHOR]

Due to the importance of characteristics associated with the immunity and physiology of organisms, gender is always taken into account when improving the breeding efficiency of economically important animals. Protein variations in the cell-free ceolomic fluid (CCF) of male and female Apostichopus japonicus before and after spawning were investigated using a comparative proteomic approach, for the purpose of understanding the influence of gender and gender associated reproductive processes on humoral immunity and physiological characteristics of the sea cucumber, A. japonicus. A total of 6839 peptides were obtained and a set of 1466 proteins were identified in the CCF of male and female A. japonicus before and after spawning. Partial least squares discrimination analysis indicated that protein expression profiles in the CCF of A. japonicus were significantly affected by both gender and reproductive processes. In addition, the differentially expressed proteins (DEPs) in the CCF of different genders and reproductive stages of A. japonicus were determined and immune-related proteins in these DEPs were screened. Findings revealed that the alternative pathway of complement activation in both male and female A. japonicus before spawning might take precedence over that after spawning. Further KEGG enrichment analyses of DEPs suggested that the capacity of muscle contraction in A. japonicus females, and food digestion, nutrition absorption, epithelial differentiation as well as growth in A. japonicus males might be enhanced after spawning. Further, compared with A. japonicus females, males may have an advantage in growth in the stages following spawning. Besides, according to KEGG annotation related to metabolism, arginine biosynthesis and purine metabolism were dominant in the CCF of male and female A. japonicus , respectively, suggesting notable metabolic differences in female and male A. japonicus. Overall, our study provides new insight into the understanding of molecular mechanisms underlying gender-determined immune and physiological differences in A. japonicus. The current study aimed to reveal the gender differences in humoral immunity and physiological characteristics associated with reproduction in the sea cucumber Apostichopus japonicus. To the best of our knowledge, this is the first proteomic study analyzing the differences in protein profile between male and female A. japonicus. By analyzing the expression differences of the proteome via label-free proteomic technology, we revealed that both gender and reproduction could alter the protein composition and abundance in the cell-free colemic fluid (CCF) of A. japonicus. Based on the recognition of differentially expressed proteins (DEPs) related to immune function among the CCFs, shifts in humoral immunity of male and female A. japonicus that underwent reproduction were obtained. Moreover, according to the enrichment analyses of DEPs based on Kyoto Encyclopedia of Genes and Genomes, a draft view of how the male and female A. japonicus affected by reproduction physiologically was drawn. The results suggested that the alternative pathway of complement activation in both male and female A. japonicus were weakened after spawning. In addition, after reproduction, the capacity of muscle contraction might be enhanced in female A. japonicus , and the nutrients consumption, epithelial differentiation and growth might be strengthened in males. Further, ipath analysis indicated that A. japonicus with different genders also had notable differences in metabolism that related to arginine biosynthesis and purine metabolism. The findings presented here will improve the cognition of researchers in the molecular mechanism underlying the gender-determined immune and phyisological differences of A. japonicus and contribute for the meticulous breeding of A. japonicus. Unlabelled Image • Both gender and reproduction affected Apostichopus japonicus immunity and physiology. • A. japonicus alternative complement pathway was depressed after spawning. • The muscle contraction capacity in females might be enhanced after spawning. • The nutrients consumption and growth might be boosted in males after spawning. • The males might have advantage over females in growth after sapwning. [ABSTRACT FROM AUTHOR]

This study was conducted to evaluate the effects of Bacillus licheniformis and combined herbs extracts on the physiological and immune characteristics, intestinal microbiota, and vibriosis resistance of sea cucumber Apostichopus japonicus. The sea cucumbers were fed with basal diets supplemented with B. licheniformis (B group), combined herbs extracts (C group), or both (BC group). The BC group exhibited the better growth performance and higher digestive and immune enzyme activities, whereas the lowest parameters appeared in the control group. This revealed that dietary B. licheniformis and combined herbs extracts in combination could improve digestion, food intake, phosphatase-responsiveness, and oxidation resistance more efficiently compared with the other groups. The BC group was also more capable of regulating intestinal flora balance of sea cucumbers by increasing the beneficial bacteria related to energy synthesis and metabolic conversion, and inhibiting the potential pathogens associated with organic damage and metabolic disorders. Furthermore, the BC group showed greater ability of improving disease resistance by reducing the cumulative mortality rates and the counts of Vibrio splendidus. These results collectively demonstrated that dietary B. licheniformis and combined herbs extracts could improve the physiological and immune parameters, optimize the microbial community, and enhance the resistance to vibriosis of sea cucumbers, and the health-promoting effects were more obvious by supplying them in combination. [ABSTRACT FROM AUTHOR]

The sea cucumber Apostichopus japonicus is one of the most dominant and economically important aquaculture species in China. Saponin, which possesses notable biological and pharmacological properties, is a key determinant of the nutritional and health value of A. japonicus. In the present study, we amplified the full-length cDNA of a phosphomevalonate kinase (PMK) gene (named AjPMK) using rapid amplification of cDNA ends (RACE). Subsequently, we engineered a recombinant AjPMK (rAjPMK) protein and assessed its enzymatic activity by enzyme-linked immunosorbent assay (ELISA). Proteins that interact with rAjPMK were screened and identified via pull-down assay combined with liquid chromatography with tandem mass spectrometry (LC-MS/MS). We found that the full-length cDNA of AjPMK contained 1354 bp and an open reading frame (ORF) of 612 bp. The AjPMK protein was predicted not to contain a signal peptide but to contain a phosphonolate kinase domain seen in higher eukaryotes and a P-loop with a relatively conserved nucleoside triphosphate hydrolase domain. The molecular weight of the AjPMK protein was estimated to be 23.81 kDa, and its isoelectric point was predicted to be 8.72. Phylogenetic analysis showed that AjPMK had a closer evolutionary relationship with genes from starfish than with those of other selected species. Besides, we found that rAjPMK synthesized mevalonate-5-diphosphate, interacted either directly or indirectly with crucial pattern recognition receptors (PRRs) and was regulated by immune-related processes, including antioxidative reactions, stress resistance responses and enzyme hydrolysis. Moreover, AjPMK also interacted with farnesyl pyrophosphate synthase, an enzyme reported to be involved in saponin biosynthesis. Together, our findings implied that AjPMK may be directly involved in saponin biosynthesis and the regulation of various innate immune processes. • A phosphomevalonate kinase (PMK) gene was identified in sea cucumber Apostichopus japonicus. • AjPMK is involved in sea cucumber saponin biosynthesis. • AjPMK might be regulated by multiple immune processes. [ABSTRACT FROM AUTHOR]

DNA methylation is an important epigenetic modification that regulates gene expression in many biological processes, including immune response. In this study, whole-genome bisulfite sequencing (WGBS) was carried out on healthy body wall (HB) and skin ulceration syndrome (SUS) infected body wall (SFB) to gain insights into the epigenetic regulatory mechanism in sea cucumber Apostichopus japonicus. After comparison, a total of 116,522 differentially methylated regions (DMRs) were obtained including 67,269 hyper-methylated and 49,253 hypo-methylated DMRs (p < 0.05, FDR < 0.001). GO enrichment analysis indicated that regulation of DNA-templated transcription (GO: 0006355), where DNA methylation occurred, was the most significant term in the biology process. The integration of methylome and transcriptome analysis revealed that 10,499 DMRs were negatively correlated with 496 differentially expressed genes (DEGs). Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis showed that these DEGs were enriched in the phosphoinositide 3-kinase-protein kinase B (PI3K/Akt)/mammalian target of rapamycin (mTOR) signaling pathway. Interestingly, two serine/threonine-protein kinases, nemo-like kinase (NLK) and mTOR, were highlighted after functional analysis. The variations of methylation in these two genes were associated with SUS infection and immune regulation. They regulated gene expression at different levels and showed interaction during response process. The validation of methylation sites showed high consistency between pyrosequencing and WGBS. WGBS analysis not only revealed the changes of DNA methylation, but also presented important information about the regulation of key genes after SUS infection in A. japonicus. • WGBS were conducted on the healthy and SUS-infected body wall of Apostichopus japonicus. • A total of 116,522 DMRs were obtained including 67,269 hyper-methylated and 49,253 hypo-methylated DMRs. • The integration of methylome and transcriptome revealed that 10,499 DMRs had a negative correlation with 496 DEGs. • The variations of methylation in mTOR and NLK were associated with SUS infection and immune regulation. [ABSTRACT FROM AUTHOR]

MicroRNAs (miRNAs) are small non-coding RNAs that mediate mRNA degradation or translation repression. Previous study showed that the expression of miRNAs was significantly changed in the body wall of sea cucumber Apostichopus japonicus after skin ulceration syndrome (SUS) infection, which is a dynamic process. However, the critical miRNAs from body wall that involved in different infection stages of SUS remain unknown. In this study, four cDNA libraries were constructed with the body wall from healthy and three SUS-infected stages of A. japonicus . A total of 248 conserved miRNAs and five novel miRNAs were identified through Illumina HiSeq 2000 platform. Compared to the control, 238 miRNAs showed significant differential expression at three stages of SUS progression. Totally, 3149 miRNA-mRNA pairs were identified by target prediction and 314 miRNA-mRNA pairs showed negative correlation. It is noteworthy that 15 miRNAs and four mRNAs were located at the crucial positions of the network built with the anti-correlated miRNA-mRNA pairs. GO and KEGG enrichment analysis indicated that the predicted targets were involved in many immune-related processes. Deep analysis of miR-31c-5p, miR-29b-3p, NF-kB, mucin 2 and titin showed that they may play important roles in the pathogens attachment and recognition, signaling transduction and lesions repair of A. japonicus after SUS infection. These results would be useful for further investigating the potential roles of critical miRNAs and mRNAs in A. japonicus immune regulation. [ABSTRACT FROM AUTHOR]

MicroRNAs (miRNAs) are small non-coding RNAs that are involved in many biological processes. To investigate the miRNAs related to skin ulceration syndrome (SUS) of Apostichopus japonicus , small RNA libraries of body wall, intestine, respiratory tree and coelomocytes from healthy and diseased A. japonicus were sequenced on Illumina Hiseq 2000 platform. A total of 247 conserved and 10 novel miRNAs were identified across all libraries. After pair-wise comparisons, 215 miRNAs in body wall, 36 in intestine, 2 in respiratory tree and 38 in coelomocytes showed significant expression differences. Further analyses were conducted on some tissue-specific differentially expressed miRNAs: miR-8 and miR-486-5p in body wall, miR-200-3p, let-7-5p and miR-125 in intestine, miR-278a-3p and bantam in respiratory, miR-10a and miR-184 in coelomocytes. Notably, these miRNAs in some species were reported to function in various physiological or pathological processes associated with immune regulations. Using stem-loop quantitative real time PCR, six representative miRNAs in four tissues were selected to validate the sequencing results. The Pearson's correlation coefficient ( R ) of the six miRNAs ranged from 0.777 to 0.948, which confirmed the consistency and accuracy between these two approaches. This study provides comprehensive expression and regulation patterns of functional miRNAs in different tissues and gives insights into the tissue-specific immune response mechanisms in SUS-infected A. japonicus . [ABSTRACT FROM AUTHOR]

In recent years, sea cucumber has become a favorite healthcare food due to its characteristic prevention of cardiovascular diseases, suppression of tumors, as well as enhancement of immunity. In order to screen the anti-tumoral proteins or peptides from sea cucumber (Apostichopus japonicus), its cDNA library was analyzed, and a disintegrin-like and metalloproteinase with thrombospondin type 1 motif, member 13 (ADAMTS13)-like was found. ADAMTS13-like contains 10 thrombospondin 1 (TSP1) domains. Based on analysis of bioinformatics, the third TSP1 domain of this protein, which is further named Aj-Tspin, contains an arginine-glycine-aspartate (RGD) motif. Since our previous studies showed that the recombinant RGD-containing peptide from lampreys showed anti-tumoral activity, the third TSP1 domain of ADAMTS13-like was chosen to evaluate it's effect on tumor proliferation and metastasis, despite the fact it shares almost no homologue with disintegrins from other species. After artificial synthesis, its cDNA sequence, Aj-Tspin, which is composed of 56 amino acids, was subcloned into a pET23b vector and expressed as a recombinant Aj-Tspin (rAj-Tspin) in a soluble form with a molecular weight of 6.976 kDa. Through affinity chromatography, rAj-Tspin was purified as a single protein. Both anti-proliferation and immunofluorescence assays showed that rAj-Tspin suppressed the proliferation of Lewis lung carcinoma (LLC) cells through apoptosis. Adhesion assay also displayed that rAj-Tspin inhibited the adhesion of LLC cells to ECM proteins, including fibronectin, laminin, vitronectin and collagen. Lastly, rAj-Tspin also suppressed the migration and invasion of LLC cells across the filter in transwells. Thus, the above indicates that rAj-Tspin might act as a potential anti-tumoral drug in the future and could also provide information on the nutritional value of sea cucumber. [ABSTRACT FROM AUTHOR]

To investigate the effects of Lactobacillus acidophilus and tussah immunoreactive substances (TIS) supplementation alone or together on the growth performance, digestive and immune-related enzyme activities, and intestinal microbiota of the sea cucumber Apostichopus japonicus , a feeding experiment was conducted. The supplementation of L. acidophilus and TIS together produced the maximum digestive and immune activities, while the minimum values occurred in the control group. No remarkable differences in enzyme activities were observed when supplemented individually. Dietary L. acidophilus and TIS in combination might be more capable of improving digestive capacity, food utilization rate, phosphatase-responsiveness and antioxidants. Furthermore, the supplementation of L. acidophilus and TIS in combination demonstrated a greater ability to optimize the intestinal microbiota of A. japonicus by increasing the potentially beneficial bacteria involved in energy production and biosynthesis, and suppressing the opportunistic pathogens. These results collectively indicated that the combined supplementation of L. acidophilus and TIS has a synergistic effect on enhancing immunity and digestibility, and could improve the intestinal microbiota structure of A. japonicus , suggesting potential for industrial feeding applications. [Display omitted] • L. acidophilus and TIS improved the digestibility and immunity of sea cucumbers. • L. acidophilus and TIS optimized the community composition of sea cucumbers. • The positive effects were more obvious by applying L. acidophilus and TIS together. [ABSTRACT FROM AUTHOR]

Diseases during aquaculture can limit the growth and survival of sea cucumber (Apostichopus japonicus), one of the most valuable aquaculture species in China. Recently, a novel disease, named body vesicular syndrome (BVS), has been frequently observed, resulting in the blister, lysis, and rupture of A. japonicus after boiling. Information regarding BVS in A. japonicus , however, has not been addressed. In the present study, the intestinal fungal communities from healthy and BVS A. japonicus were measured by the high-throughput sequencing technology. Significant higher richness and diversity were observed from the intestinal fungal communities of BVS A. japonicus compared to the healthy controls. Moreover, the results of principal coordinate analysis and PERMANOVA revealed that the composition structures of intestinal fungal communities were significantly changed in the A. japonicus with BVS. Further abundance difference analyses were conducted for both the composition and predicted functions of the intestinal fungal communities between the healthy and BVS A. japonicus. The results showed that the classes of Tremelloycetes and Eurotiomycetes were enriched in the intestines of A. japonicus with BVS. Meanwhile, the abundances of animal pathogen and fungal parasite were also significantly enhanced in the intestines of BVS A. japonicus. Overall, the results of our study illustrated the associations of BVS and intestinal fungal communities in A. japonicus and expanded our understanding of this disease. • A novel disease of sea cucumber named body vesicular syndrome (BVS) was investigated. • The diversity of intestinal fungal communities was increased in sea cucumbers with BVS. • The intestinal fungal community compositions were changed in the BVS sea cucumbers. • Enhanced pathogenic fungi and parasites were observed in sea cucumbers with BVS. [ABSTRACT FROM AUTHOR]